genome.fa.s12.2.7.7.80.10.50.1000.21.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   

This is table  21  of  128  ( 15303 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6277659--6277684	11	2.4	11	100	0	52	61	0	0	38	0.96
6277553--6277764	72	3.0	71	89	4	313	64	0	1	33	1.06
6277610--6277702	10	9.2	10	67	18	50	68	1	0	30	0.96
6277685--6277754	23	3.3	23	69	24	71	62	0	2	34	1.10
6277623--6277754	40	3.1	41	87	8	169	62	0	1	34	1.10
6277638--6277724	11	8.1	11	70	20	51	67	1	1	29	1.05
6279774--6279988	103	2.1	103	97	0	414	48	4	2	45	1.34
6281520--6281582	28	2.3	27	83	8	81	38	3	3	55	1.32
6282031--6282257	114	2.0	114	90	0	355	26	23	25	23	2.00
6282075--6282412	155	2.2	155	93	0	568	25	22	27	25	2.00
6282185--6282298	41	2.8	40	86	2	156	21	19	31	28	1.97
6282230--6282588	113	3.1	114	89	1	558	24	22	26	26	2.00
6282498--6282672	74	2.4	74	86	0	262	24	22	25	27	2.00
6282393--6282756	188	2.0	185	87	2	532	25	23	24	26	2.00
6282393--6282773	187	2.0	187	86	3	525	24	23	24	27	2.00
6282578--6282834	114	2.3	114	84	1	327	25	21	25	28	1.99
6283525--6283567	13	3.2	13	87	9	59	9	0	37	53	1.33
6283663--6283819	72	2.2	72	82	10	187	28	14	20	36	1.91
6287258--6287434	87	2.0	87	88	0	264	38	15	31	14	1.87
6287385--6287429	21	2.1	21	83	0	54	33	20	40	6	1.78
6287270--6287460	87	2.2	86	83	5	215	40	17	28	13	1.87
6287639--6287664	13	2.0	13	100	0	52	46	23	15	15	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6287594--6287707	56	2.0	57	86	1	158	34	19	24	21	1.96
6287652--6287789	43	3.2	43	87	8	208	31	18	25	24	1.98
6287652--6287789	44	3.2	44	89	6	203	31	18	25	24	1.98
6287771--6287816	22	2.1	22	87	0	65	41	28	19	10	1.85
6300084--6300141	30	1.9	30	85	0	80	39	10	22	27	1.86
6300353--6300379	13	2.1	13	100	0	54	29	0	7	62	1.22
6300478--6300769	50	5.9	50	84	2	356	27	21	29	20	1.98
6311916--6312066	41	3.6	41	83	6	178	30	14	19	35	1.91
6313573--6313626	22	2.5	22	87	6	74	18	22	16	42	1.89
6316111--6316152	17	2.5	17	96	3	77	35	9	0	54	1.33
6316250--6316290	12	3.4	12	96	0	73	29	34	17	19	1.94
6324657--6324692	8	4.9	8	80	19	51	66	0	0	33	0.92
6324654--6324684	13	2.5	12	94	5	53	67	0	0	32	0.91
6338180--6338266	15	5.6	15	66	16	52	74	1	18	5	1.07
6338145--6338246	40	2.5	40	79	6	98	72	5	13	7	1.26
6339043--6339106	21	3.0	21	82	14	78	78	0	12	9	0.97
6339042--6339098	23	2.6	23	86	10	75	80	0	12	7	0.89
6339053--6339106	14	3.8	14	76	11	56	77	0	12	9	0.98
6340442--6340744	44	6.7	44	75	12	263	32	18	20	28	1.96
6340484--6340793	88	3.4	87	73	13	302	34	17	20	28	1.95
6340516--6340801	98	3.0	97	73	15	236	33	17	20	27	1.95
6340442--6340801	186	1.9	186	93	1	623	33	18	20	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6340896--6341840	50	18.9	49	69	5	520	32	22	19	24	1.97
6340856--6341840	100	9.9	100	86	2	1176	32	22	20	24	1.97
6340862--6341840	299	3.3	300	85	2	1236	33	22	20	24	1.97
6342885--6343731	46	18.5	46	94	4	1376	27	22	16	32	1.96
6342971--6343041	37	1.9	37	94	0	124	26	22	14	36	1.92
6343618--6343717	52	1.9	52	93	0	173	27	24	15	34	1.94
6346431--6346463	3	11.0	3	100	0	66	66	0	0	33	0.92
6346462--6346494	3	11.0	3	100	0	66	33	0	0	66	0.92
6348296--6348322	5	5.4	5	100	0	54	62	18	0	18	1.32
6349276--6349325	20	2.6	20	81	6	59	22	2	2	74	1.03
6360973--6361217	44	5.7	43	75	13	182	26	20	25	26	1.99
6361330--6361712	44	8.8	44	73	10	254	28	20	23	27	1.99
6361506--6361699	89	2.2	88	80	8	207	28	20	22	28	1.99
6361307--6361733	217	2.0	217	97	0	809	28	20	23	27	1.99
6362103--6362134	5	6.4	5	100	0	64	62	18	0	18	1.33
6363092--6363147	20	3.0	20	79	7	64	23	1	1	73	1.03
6363525--6363566	19	2.2	20	82	4	50	30	7	11	50	1.66
6366252--6366399	27	5.5	26	76	7	127	33	13	27	25	1.93
6366253--6366399	54	2.7	54	77	2	143	34	13	27	25	1.93
6372564--6372625	29	2.1	29	96	0	115	40	22	14	22	1.90
6381645--6381686	20	2.1	20	100	0	84	23	9	21	45	1.81
6393146--6393172	7	3.9	7	100	0	54	44	0	29	25	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6401284--6401338	25	2.2	25	80	0	65	21	30	27	20	1.98
6403800--6403876	19	3.7	19	73	18	73	5	28	15	50	1.65
6403819--6403935	25	4.9	25	82	12	165	2	25	23	47	1.64
6403795--6403901	44	2.4	44	100	0	214	3	27	20	48	1.66
6403819--6403952	69	1.9	69	92	0	223	2	25	24	47	1.63
6403907--6403952	19	2.4	19	96	0	83	0	23	28	47	1.52
6411483--6411541	13	4.5	13	82	0	55	37	22	8	32	1.84
6414825--6414855	16	1.9	16	93	0	53	35	0	3	61	1.12
6422873--6422916	23	1.9	22	82	17	54	36	25	0	38	1.56
6422961--6423049	45	2.0	45	93	0	151	35	23	15	24	1.94
6423061--6423246	51	3.7	48	75	15	157	31	26	16	24	1.96
6423057--6423242	101	1.8	99	86	5	257	32	26	16	24	1.96
6441238--6441292	22	2.5	22	100	0	110	27	21	20	30	1.98
6443044--6443081	19	2.0	19	85	10	51	52	15	2	28	1.56
6451513--6451699	22	8.5	22	100	0	374	27	22	18	31	1.97
6453451--6453488	19	2.0	19	85	10	51	52	15	2	28	1.56
6456344--6456386	7	6.6	7	82	15	56	32	0	0	67	0.91
6456351--6456392	18	2.3	18	95	0	75	30	0	0	69	0.89
6457092--6457120	2	14.5	2	100	0	58	48	0	0	51	1.00
6462610--6462665	13	4.3	13	82	8	69	1	42	23	32	1.64
6462609--6462665	26	2.2	26	90	0	87	1	42	22	33	1.64
6464117--6464207	25	3.6	25	75	7	67	45	15	8	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6465879--6465924	21	2.2	21	84	0	56	34	10	28	26	1.90
6472436--6472469	17	2.0	17	88	0	50	32	2	26	38	1.71
6472888--6472940	24	2.2	25	83	10	74	37	5	11	45	1.64
6473145--6473205	27	2.1	29	85	8	81	42	6	1	49	1.38
6477983--6478385	203	2.0	203	95	0	725	44	20	12	22	1.85
6478944--6478987	6	7.3	6	89	0	70	50	18	0	31	1.47
6480833--6481266	217	2.0	217	98	0	832	34	25	11	29	1.91
6486198--6486242	23	2.0	23	83	12	58	71	6	17	4	1.25
6486538--6486579	18	2.3	19	79	4	50	78	0	9	11	0.96
6493944--6494143	93	2.2	91	81	7	221	36	15	18	30	1.91
6494134--6494168	5	7.0	5	96	0	61	40	17	20	22	1.92
6496172--6496214	22	2.0	21	81	4	50	60	9	4	25	1.47
6506517--6506557	22	1.9	21	85	5	55	36	12	12	39	1.80
6514492--6514520	2	14.5	2	100	0	58	48	0	0	51	1.00
6517629--6517662	17	1.9	18	88	5	52	17	5	2	73	1.16
6522456--6522519	29	2.2	29	88	0	92	32	25	1	40	1.65
6523311--6523339	14	2.1	14	100	0	58	34	6	37	20	1.80
6523421--6523485	20	3.3	19	76	16	62	40	7	0	52	1.30
6532038--6532102	30	2.2	30	88	0	94	30	15	29	24	1.96
6533304--6533339	19	1.9	19	94	5	65	61	5	5	27	1.41
6535620--6535690	32	2.2	32	87	0	97	32	1	1	64	1.11
6535632--6535693	14	4.1	15	73	17	56	30	0	1	67	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6559605--6559828	122	1.8	121	80	5	263	30	25	15	29	1.95
6561914--6561985	27	2.6	28	84	2	92	15	12	13	58	1.64
6561914--6562013	28	3.7	26	77	13	87	16	12	15	57	1.66
6562196--6562274	36	2.2	35	80	6	88	32	32	10	24	1.88
6566269--6566295	1	27.0	1	100	0	54	100	0	0	0	0.00
6572863--6572901	20	1.9	21	84	5	53	35	17	25	20	1.95
6576877--6576926	25	2.0	25	88	7	75	38	8	10	44	1.68
6582237--6582276	20	2.0	20	85	9	55	40	12	15	32	1.84
6599908--6600181	42	6.4	43	80	3	259	27	25	18	28	1.98
6599908--6600216	43	7.3	43	80	4	254	27	25	18	28	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128